Extremophiles最新文献_第2页

Genome-based classification of Halobellus rubicundus sp. nov., a novel extremely halophilic archaeon isolated from a Korean solar saltern. 基于基因组的 Halobellus rubicundus sp.

IF 2.6 3区生物学

Extremophiles Pub Date : 2024-11-06 DOI: 10.1007/s00792-024-01367-x

Chi Young Hwang, Eui-Sang Cho, In-Tae Cha, Ki-Eun Lee, Eun-Young Lee, Myung-Ji Seo

{"title":"Genome-based classification of Halobellus rubicundus sp. nov., a novel extremely halophilic archaeon isolated from a Korean solar saltern.","authors":"Chi Young Hwang, Eui-Sang Cho, In-Tae Cha, Ki-Eun Lee, Eun-Young Lee, Myung-Ji Seo","doi":"10.1007/s00792-024-01367-x","DOIUrl":"10.1007/s00792-024-01367-x","url":null,"abstract":"A novel extremely halophilic archaeon designated, MBLA0158T, was isolated from a solar saltern in Sorae, Republic of Korea. The colonies are red-pigmented, Gram-stain-negative, pleomorphic, non-motile, and lysed in distilled water. The strain grows at 25-45 °C (optimum, 37 °C), in 15-30% (w/v) NaCl (optimum, 20%) and 0.1-1.0 M Mg2+ (optimum, 0.2-0.3 M) at pH 6.0-10.0 (optimum, 7.0-8.0). Comparative analysis based on the 16S rRNA gene sequence revealed that this strain is most closely related to the Halobellus inordinatus YC20T with a sequence identity of 96.0%. Strain MBLA0158T contained phosphatidylglycerol and phosphatidylglycerol phosphate methyl ester as major polar lipids. The genome size is 3.29 Mb and the DNA G + C content is 66.9 mol%. Phylogenomic analysis confirmed that strain MBLA0158T is distinct from previously reported type strains of the genus Halobellus. Pan-genome analysis showed that strain MBLA0158T contains 419 genes that are not present in other type strains of the genus Halobellus. Based on overall analyses, strain MBLA0158T is considered to represent a new species of the genus Halobellus, for which the name Halobellus rubicundus sp. nov. is proposed. The type strain is MBLA0158T (= KCTC 4318T = JCM 36642T).","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"28 3","pages":"49"},"PeriodicalIF":2.6,"publicationDate":"2024-11-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142589886","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Sugar alcohol degradation in Archaea: uptake and degradation of mannitol and sorbitol in Haloarcula hispanica. 古细菌的糖醇降解：Haloarcula hispanica 对甘露醇和山梨醇的吸收和降解。

IF 4.6 3区生物学

Extremophiles Pub Date : 2024-10-28 DOI: 10.1007/s00792-024-01365-z

Marius Ortjohann, Peter Schönheit

{"title":"Sugar alcohol degradation in Archaea: uptake and degradation of mannitol and sorbitol in Haloarcula hispanica.","authors":"Marius Ortjohann, Peter Schönheit","doi":"10.1007/s00792-024-01365-z","DOIUrl":"10.1007/s00792-024-01365-z","url":null,"abstract":"The halophilic archaeon Haloarcula hispanica utilizes the sugar alcohols mannitol and sorbitol as carbon and energy sources. Genes, enzymes, and transcriptional regulators involved in uptake and degradation of these sugar alcohols were identified by growth experiments with deletion mutants and enzyme characterization. It is shown that both mannitol and sorbitol are taken up via a single ABC transporter of the CUT1 transporter family. Then, mannitol and sorbitol are oxidized to fructose by two distinct dehydrogenases. Fructose is further phosphorylated to fructose-1-phosphate by a haloarchaeal ketohexokinase, providing the first evidence for a physiological function of ketohexokinase in prokaryotes. Finally, fructose-1-phosphate is phosphorylated via fructose-1-phosphate kinase to fructose-1,6-bisphosphate, which is cleaved to triosephosphates by a Class I fructose-1,6-bisphosphate aldolase. Two distinct transcriptional regulators, acting as activators, have been identified: an IclR-like regulator involved in activating genes for sugar alcohol uptake and oxidation to fructose, and a GfcR-like regulator that likely activates genes involved in the degradation of fructose to pyruvate. This is the first comprehensive analysis of a sugar alcohol degradation pathway in Archaea.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"28 3","pages":"48"},"PeriodicalIF":4.6,"publicationDate":"2024-10-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11519228/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142521505","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Genome‑based classification of the family Natrialbaceae and description of four novel halophilic archaea from three saline lakes and a saline-alkaline land. 基于基因组的 Natrialbaceae 科分类以及对来自三个盐湖和一个盐碱地的四种新型嗜卤古细菌的描述。

IF 2.6 3区生物学

Extremophiles Pub Date : 2024-10-22 DOI: 10.1007/s00792-024-01366-y

Xin-Yue Dong, Ya-Ling Mao, Qing-Ke Zhang, Ling-Rui Zhu, Jing Hou, Heng-Lin Cui

{"title":"Genome‑based classification of the family Natrialbaceae and description of four novel halophilic archaea from three saline lakes and a saline-alkaline land.","authors":"Xin-Yue Dong, Ya-Ling Mao, Qing-Ke Zhang, Ling-Rui Zhu, Jing Hou, Heng-Lin Cui","doi":"10.1007/s00792-024-01366-y","DOIUrl":"10.1007/s00792-024-01366-y","url":null,"abstract":"The current representatives of the family Natrialbaceae within the class Halobacteria were subjected to phylogenetic, phylogenomic, and comparative genomic analyses. The current species of Halobiforma and Halomontanus were found to be related to those of Natronobacterium and Natronoglomus, respectively. According to the cutoff value of average amino acid identity (AAI) (≤ 76%) proposed to differentiate genera within the family Natrialbaceae, Halobiforma, and Natronoglomus should be merged with Natronobacterium and Halomontanus, respectively. Beyond these, four novel halophilic archaeal strains, CCL63T, AD-5T, CG52T, and KLK7T, isolated from three saline lakes and a saline-alkaline land in China, were simultaneously subjected to polyphasic classification. The phenotypic, phylogenetic, phylogenomic, and comparative genomic analyses indicated that strain CCL63T (= CGMCC 1.18663T = JCM 35096T) represents a novel genus of the family Natrialbaceae, strains AD-5T (= CGMCC 1.13783T = JCM 33734T) and CG52T (= CGMCC 1.17139T = JCM 34160T) represent two novel species of the genus Natronococcus, and strain KLK7T (= MCCC 4K00128T = KCTC 4307T) represents a novel species of Haloterrigena. Halovalidus salilacus gen. nov., sp. nov., Natronococcus wangiae sp. nov., Natronococcus zhouii sp. nov., and Haloterrigena salinisoli sp. nov. are further proposed based on these type strains accordingly.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"28 3","pages":"47"},"PeriodicalIF":2.6,"publicationDate":"2024-10-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142461584","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Diversity, distribution and phytotoxic and anti-Trypanosoma activities of cultivable fungi associated with Magellan sub-Antarctic strait and Maritime Antarctic macroalgae. 与麦哲伦亚南极海峡和南极海洋大型藻类有关的可栽培真菌的多样性、分布、植物毒性和抗锥虫活性。

IF 2.6 3区生物学

Extremophiles Pub Date : 2024-10-15 DOI: 10.1007/s00792-024-01363-1

Matheus Souto de Freitas, Camila Rodrigues de Carvalho, Franciane Maria Pellizzari, Andres Omar Mansilla, Johanna Marambio, Tânia Maria de Almeida Alves, Silvane Maria Fonseca Murta, Carlos Leomar Zani, Peter Convey, Luiz Henrique Rosa

{"title":"Diversity, distribution and phytotoxic and anti-Trypanosoma activities of cultivable fungi associated with Magellan sub-Antarctic strait and Maritime Antarctic macroalgae.","authors":"Matheus Souto de Freitas, Camila Rodrigues de Carvalho, Franciane Maria Pellizzari, Andres Omar Mansilla, Johanna Marambio, Tânia Maria de Almeida Alves, Silvane Maria Fonseca Murta, Carlos Leomar Zani, Peter Convey, Luiz Henrique Rosa","doi":"10.1007/s00792-024-01363-1","DOIUrl":"10.1007/s00792-024-01363-1","url":null,"abstract":"We isolated and characterized the community of cultivable fungi associated with marine macroalgae present in the Magellan sub-Antarctic straits and the South Shetland Islands, Maritime Antarctica, and evaluated their production of bioactive metabolites. A total of 201 filamentous fungal isolates were obtained. The genera Antarctomyces, Pseudogymnoascus, Microdochium, Trichoderma, Cladosporium, Penicillium, Neoascochyta, Entomortierella and Linnemannia were associated with Antarctic macroalgae, with Neoascochyta paspali being the most abundant taxon. In contrast, 12 taxa representing Cadophora, Microdochium, Penicillium, Pseudogymnoascus were associated with macroalgae from the Magellan sub-Antarctic, with Penicillium dominating the assemblages. The diversity indices of the fungal communities associated with macroalgae in the two regions were similar. Among 177 fungal extracts assessed for metabolite production, 31 (17.5%) showed strong phytotoxic activity and 17 (9.6%) showed anti-Trypanosoma cruzi activity. Penicillium showed the highest phytotoxic and anti-Trypanosoma activity values. The detection of taxa in common between the polar and cold temperate zones reinforces the need for further investigations of the distribution of species in these distinct ecoregions. The detection of bioactive extracts produced particularly by Penicillium representatives reinforces the potential to obtain active molecules that can be explored as natural products or as sources of bioactive compounds with application in agriculture and biomedicine.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"28 3","pages":"46"},"PeriodicalIF":2.6,"publicationDate":"2024-10-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142461583","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Identification of a thermostable L-asparaginase from Pyrococcus yayanosii CH1 and its application in the reduction of acrylamide. 鉴定来自 Pyrococcus yayanosii CH1 的一种可恒温的 L-天冬酰胺酶及其在还原丙烯酰胺中的应用。

IF 2.6 3区生物学

Extremophiles Pub Date : 2024-09-24 DOI: 10.1007/s00792-024-01360-4

Dawei Ni, Wei Xu, Wenli Zhang, Wanmeng Mu

引用次数: 0

Utilisation of acid-tolerant bacteria for base metal recovery under strongly acidic conditions. 在强酸性条件下利用耐酸细菌回收贱金属。

IF 2.6 3区生物学

Extremophiles Pub Date : 2024-09-24 DOI: 10.1007/s00792-024-01362-2

Chikara Takano, Kazunori Nakashima, Satoru Kawasaki, Hideki Aoyagi

{"title":"Utilisation of acid-tolerant bacteria for base metal recovery under strongly acidic conditions.","authors":"Chikara Takano, Kazunori Nakashima, Satoru Kawasaki, Hideki Aoyagi","doi":"10.1007/s00792-024-01362-2","DOIUrl":"10.1007/s00792-024-01362-2","url":null,"abstract":"Hydrometallurgical bioprocesses for base metal recovery in environmentally friendly electronic device waste (e-waste) recycling are typically studied under neutral pH conditions to avoid competition between metals and hydrogen ions. However, metal leachate is generally strongly acidic, thus necessitating a neutralisation process in the application of these bioprocesses to e-waste recycling. To solve this pH disparity, we focused on acid-tolerant bacteria for metal recovery under strongly acidic conditions. Four acid-tolerant bacterial strains were isolated from neutral pH environments to recover base metals from simulated waste metal leachate (pH 1.5, containing 100 or 1000 mg L-1 of Co, Cu, Li, Mn, and Ni) without neutralisation. The laboratory setting for sequential metal recovery was established using these strains and a reported metal-adsorbing bacterium, Micrococcus luteus JCM1464. The metal species were successfully recovered from 100 mg L-1 metal mixtures at the following rates: Co (8.95%), Cu (21.23%), Li (5.49%), Mn (13.18%), and Ni (9.91%). From 1000 mg L-1 metal mixtures, Co (7.23%), Cu (6.82%), Li (5.85%), Mn (7.64%), and Ni (7.52%) were recovered. These results indicated the amenability of acid-tolerant bacteria to environmentally friendly base metal recycling, contributing to the development of novel industrial application of the beneficial but unutilised bioresource comprising acid-tolerant bacteria.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"28 3","pages":"45"},"PeriodicalIF":2.6,"publicationDate":"2024-09-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142307473","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Molecular diversity of green-colored microbial mats from hot springs of northern Japan. 日本北部温泉绿色微生物垫的分子多样性。

IF 2.6 3区生物学

Extremophiles Pub Date : 2024-08-31 DOI: 10.1007/s00792-024-01358-y

Yangtsho Gyaltshen, Yuu Ishii, Sophie Charvet, Eleanor Goetz, Shinichiro Maruyama, Eunsoo Kim

{"title":"Molecular diversity of green-colored microbial mats from hot springs of northern Japan.","authors":"Yangtsho Gyaltshen, Yuu Ishii, Sophie Charvet, Eleanor Goetz, Shinichiro Maruyama, Eunsoo Kim","doi":"10.1007/s00792-024-01358-y","DOIUrl":"10.1007/s00792-024-01358-y","url":null,"abstract":"We acquired and analyzed metagenome and 16S/18S rRNA gene amplicon data of green-colored microbial mats from two hot springs within the Onikobe geothermal region (Miyagi Prefecture, Japan). The two collection sites-Tamago and Warabi-were in proximity and had the same temperature (40 °C), but the Tamago site was connected to a nearby stream, whereas the Warabi site was isolated. Both the amplicon and metagenome data suggest the bacterial, especially cyanobacterial, dominance of the mats; other abundant groups include Chloroflexota, Pseudomonadota, Bacteroidota/Chlorobiota, and Deinococcota. At finer resolution, however, the taxonomic composition entirely differed between the mats. A total of 5 and 21 abundant bacterial 16S rRNA gene OTUs were identified for Tamago and Warabi, respectively; of these, 12 are putative chlorophyll- or rhodopsin-based phototrophs. The presence of phylogenetically diverse microbial eukaryotes was noted, with ciliates and amoebozoans being the most abundant eukaryote groups for Tamago and Warabi, respectively. Fifteen metagenome-assembled genomes (MAGs) were obtained, represented by 13 bacteria, one ciliate (mitochondrion), and one giant virus. A total of 15 novel taxa, including a new deeply branching Chlorobiota species, is noted from the amplicon and MAG data, highlighting the importance of environmental sequencing in uncovering hidden microorganisms.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"28 3","pages":"43"},"PeriodicalIF":2.6,"publicationDate":"2024-08-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142105966","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Molecular basis of hyper-thermostability in the thermophilic archaeal aldolase MfnB. 嗜热古细菌醛缩酶 MfnB 超耐热性的分子基础

IF 2.6 3区生物学

Extremophiles Pub Date : 2024-08-31 DOI: 10.1007/s00792-024-01359-x

Rosie M A Maddock, Carl O Marsh, Samuel T Johns, Lynden D Rooms, Phillip W Duke, Marc W van der Kamp, James E M Stach, Paul R Race

{"title":"Molecular basis of hyper-thermostability in the thermophilic archaeal aldolase MfnB.","authors":"Rosie M A Maddock, Carl O Marsh, Samuel T Johns, Lynden D Rooms, Phillip W Duke, Marc W van der Kamp, James E M Stach, Paul R Race","doi":"10.1007/s00792-024-01359-x","DOIUrl":"10.1007/s00792-024-01359-x","url":null,"abstract":"Methanogenic archaea are chemolithotrophic prokaryotes that can reduce carbon dioxide with hydrogen gas to form methane. These microorganisms make a significant contribution to the global carbon cycle, with methanogenic archaea from anoxic environments estimated to contribute > 500 million tons of global methane annually. Archaeal methanogenesis is dependent on the methanofurans; aminomethylfuran containing coenzymes that act as the primary C1 acceptor molecule during carbon dioxide fixation. Although the biosynthetic pathway to the methanofurans has been elucidated, structural adaptations which confer thermotolerance to Mfn enzymes from extremophilic archaea are yet to be investigated. Here we focus on the methanofuran biosynthetic enzyme MfnB, which catalyses the condensation of two molecules of glyceralde-3-phosphate to form 4‑(hydroxymethyl)-2-furancarboxaldehyde-phosphate. In this study, MfnB enzymes from the hyperthermophile Methanocaldococcus jannaschii and the mesophile Methanococcus maripaludis have been recombinantly overexpressed and purified to homogeneity. Thermal unfolding studies, together with steady-state kinetic assays, demonstrate thermoadaptation in the M. jannaschii enzyme. Molecular dynamics simulations have been used to provide a structural explanation for the observed properties. These reveal a greater number of side chain interactions in the M. jannaschii enzyme, which may confer protection from heating effects by enforcing spatial residue constraints.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"28 3","pages":"42"},"PeriodicalIF":2.6,"publicationDate":"2024-08-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11365854/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142105965","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Multifunctionality of a low-specificity L-threonine aldolase from the hyperthermophile Thermotoga maritima. 来自嗜热菌 Thermotoga maritima 的低特异性 L-苏氨酸醛缩酶的多功能性。

IF 2.6 3区生物学

Extremophiles Pub Date : 2024-08-27 DOI: 10.1007/s00792-024-01357-z

Tetsuya Miyamoto, Fugo Kobayashi, Konan Emori, Kumiko Sakai-Kato

引用次数: 0

Diversity of lichen mycobionts and photobionts and their relationships in the Ny-Ålesund region (Svalbard, High Arctic). Ny-Ålesund 地区（斯瓦尔巴群岛，高纬度北极地区）地衣霉菌和光菌的多样性及其关系。

IF 2.6 3区生物学

Extremophiles Pub Date : 2024-08-23 DOI: 10.1007/s00792-024-01355-1

Xiufei Chen, Jianju Feng, Liyan Yu, Tao Zhang

{"title":"Diversity of lichen mycobionts and photobionts and their relationships in the Ny-Ålesund region (Svalbard, High Arctic).","authors":"Xiufei Chen, Jianju Feng, Liyan Yu, Tao Zhang","doi":"10.1007/s00792-024-01355-1","DOIUrl":"10.1007/s00792-024-01355-1","url":null,"abstract":"Lichens are dual organisms, with one major mycobiont and one major photobiont in each lichen symbiosis, which can survive extreme environmental conditions in the Arctic. However, the diversity and distribution of lichen photobionts in the Arctic remain poorly understood compared to their mycobiont partners. This study explored the diversity of lichen mycobionts and photobionts in 197 lichen samples collected from the Ny-Ålesund region (Svalbard, High Arctic). The nuclear ribosomal internal transcribed spacer (ITS) regions were sequenced and phylogenetic analyses were performed. The relationships between mycobionts and photobionts, as well as the association patterns, were also investigated. A total of 48 species of lichen mycobionts (16 families, nine orders) and 31 species/lineages of photobionts were identified. These 31 photobiont species belonged to one class (Trebouxiophyceae) and five genera, including 22 species of Trebouxia, five species of Asterochloris, two species of Chloroidium, one species of Symbiochloris, and one species of Coccomyxa. The results indicated that most analyzed lichen mycobionts could associate with multiple photobiont species, and the photobionts also exhibited a similar pattern. The results provided an important reference dataset for characterizing the diversity of lichen mycobionts and photobionts in the High Arctic region.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"28 3","pages":"40"},"PeriodicalIF":2.6,"publicationDate":"2024-08-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142046551","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0